GapMind for Amino acid biosynthesis

 

Alignments for a candidate for fbp in Burkholderia phytofirmans PsJN

Align Fructose-bisphosphate aldolase; FBP aldolase; FBPA; Fructose-1,6-bisphosphate aldolase; EC 4.1.2.13 (characterized)
to candidate BPHYT_RS16260 BPHYT_RS16260 fructose-bisphosphate aldolase

Query= SwissProt::Q56815
         (354 letters)



>FitnessBrowser__BFirm:BPHYT_RS16260
          Length = 354

 Score =  513 bits (1321), Expect = e-150
 Identities = 253/353 (71%), Positives = 298/353 (84%)

Query: 1   MALVSMRQLLDHAADDSYGLPAFNVNNMEQVKAIMDAARATSSPVILQGSAGARKYAGEP 60
           M LVSMRQLLDHAA++ YGLPAFNVNN+EQV+AIM AA   ++PVI+Q SAGARKYAGE 
Sbjct: 1   MPLVSMRQLLDHAAENGYGLPAFNVNNLEQVQAIMAAADKVNAPVIMQASAGARKYAGEA 60

Query: 61  FLRHLIAAAVEAYPEIPVVMHQDHGASPAVCMGAIKSGFSSVMMDGSLKEDGKTPADYDY 120
           FLRHLI AAVE+YP IPVVMHQDHG SPAVCM AI+SGF+SVMMDGSL+ DGKT A Y+Y
Sbjct: 61  FLRHLIEAAVESYPHIPVVMHQDHGQSPAVCMAAIRSGFTSVMMDGSLEADGKTVASYEY 120

Query: 121 NVSVTAKVVELAHAVGVSVEGELGCLGSLETGKGEAEDGHGAEEALDHSKLLTDPDEAAQ 180
           NV V+ KVVE AH++G++VE ELG LGSLET KG+ EDGHGAE  +   +LLTDP++AA 
Sbjct: 121 NVDVSRKVVEAAHSIGITVEAELGVLGSLETMKGDKEDGHGAEGTMTREQLLTDPEQAAD 180

Query: 181 FVKATQCDALAIAIGTSHGAYKFTRKPTGDILAIDRIKAIHQRIPTTHLVMHGSSSVPQE 240
           FVK TQCDALAIAIGTSHGAYKF++KPTGDIL+I RIK IHQRIP THLVMHGSSSVPQE
Sbjct: 181 FVKLTQCDALAIAIGTSHGAYKFSKKPTGDILSIQRIKEIHQRIPNTHLVMHGSSSVPQE 240

Query: 241 LLEEIRTYGGDIKETYGVPVEEIQEGIRYGVRKVNIDTDIRLAMTAAIRRVGAKNKSEFD 300
           LL EIR +GGD+KETYGVPVEEIQEGI+ GVRKVNIDTD+RLA+T AIRR  A N S+FD
Sbjct: 241 LLAEIREFGGDMKETYGVPVEEIQEGIKNGVRKVNIDTDLRLAITGAIRRYMATNPSKFD 300

Query: 301 PRKFMAAAMEEAKKVCIARFEAFGSAGKAEKIRAIELDEMAKRYASGELAQVV 353
           PR ++  A E A K+C+ R+  FG  G+A KI+ + LD++A++Y +GEL+QVV
Sbjct: 301 PRDYLKPAREAAMKICVERYTQFGCEGQAGKIKPVSLDKIAEKYKAGELSQVV 353


Lambda     K      H
   0.316    0.132    0.369 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 430
Number of extensions: 10
Number of successful extensions: 1
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 354
Length of database: 354
Length adjustment: 29
Effective length of query: 325
Effective length of database: 325
Effective search space:   105625
Effective search space used:   105625
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)

Align candidate BPHYT_RS16260 BPHYT_RS16260 (fructose-bisphosphate aldolase)
to HMM TIGR01521 (fba: fructose-bisphosphate aldolase, class II, Calvin cycle subtype (EC 4.1.2.13))

Software error:

../bin/blast/fastacmd -i /tmp/list.14117.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.14117.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.